DCIS - pixel clustering
Candace Liu
September 30, 2020
Gaussian blur sigma=2, convert to frequencies before pixel FlowSOM
Pixel hClusters found using z-score cap=3, k=20, and iterative thresh=2 (6 iterations)
Cell-based clustering using frequencing of 100 pixel FlowSOM clusters and 20 hClusters (cap): normalize by size, k=20
1
Histogram of counts in pixel clusters
2
Heatmaps of pixel clusters x markers
3
Compare pixel clusering with cell clustering
4
Cell-based FlowSOM clustering using 100 pixel clusters
4.1
Cell cluster x frequency of pixel clusters
4.2
Cell cluster x marker (not weighted, segmentation)
4.3
Cell cluster x marker (weighted by pixel cluster frequency)
5
Cell-based FlowSOM clustering using hClusters (cap, k=20)
5.1
Cell cluster x frequency of pixel clusters
5.2
Cell cluster x marker (not weighted, segmentation)
5.3
Cell cluster x marker (weighted by pixel cluster frequency)
6
Heatmaps from normal segmentation